diff --git a/CHANGELOG.md b/CHANGELOG.md
index db28628def..3d7b23301f 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -9,6 +9,7 @@ The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.1.0/),
 ### Fixed
 
 - Handle an existing Cloudflare DNS record with a different IP when Coolify adds the DNS record of a new domain automatically. Coolify now replaces the record when it created the record and no other resource uses it. Otherwise it opens the **Configure DNS** dialog, where you can replace the record, and the domain shows the conflict instead of "Not checked"
+- Save deployments started through the MCP server as MCP deployments, not as API deployments. The deployment list shows them with the **MCP** source and filter, and the API and MCP deployment data have a new `is_mcp` field
 
 ## [v4.6.0] - 2026-11-02
 
diff --git a/app/Livewire/Project/Application/Deployment/Index.php b/app/Livewire/Project/Application/Deployment/Index.php
index 40a9dc8e68..60ec084ca7 100644
--- a/app/Livewire/Project/Application/Deployment/Index.php
+++ b/app/Livewire/Project/Application/Deployment/Index.php
@@ -26,6 +26,7 @@ class Index extends Component
         'commit_message',
         'is_webhook',
         'is_api',
+        'is_mcp',
         'rollback',
         'server_id',
         'server_name',
@@ -297,6 +298,7 @@ class Index extends Component
                     WHEN pull_request_id > 0 THEN 'pull-request'
                     WHEN is_webhook THEN 'webhook'
                     WHEN rollback THEN 'rollback'
+                    WHEN is_mcp THEN 'mcp'
                     WHEN is_api THEN 'api'
                     ELSE 'manual'
                 END AS source_key
@@ -309,6 +311,7 @@ class Index extends Component
             'pull-request' => 'Pull requests',
             'webhook' => 'Webhooks',
             'api' => 'API',
+            'mcp' => 'MCP',
             'rollback' => 'Rollbacks',
         ];
 
diff --git a/app/Mcp/Tools/Control.php b/app/Mcp/Tools/Control.php
index 3abd1fd744..e65c64ebe9 100644
--- a/app/Mcp/Tools/Control.php
+++ b/app/Mcp/Tools/Control.php
@@ -125,7 +125,7 @@ class Control extends Tool
             deployment_uuid: $deploymentUuid,
             force_rebuild: false,
             restart_only: $action === 'restart',
-            is_api: true,
+            is_mcp: true,
             no_questions_asked: $action === 'start',
         );
 
diff --git a/app/Mcp/Tools/Deploy.php b/app/Mcp/Tools/Deploy.php
index 061e29a985..4a2ea823f1 100644
--- a/app/Mcp/Tools/Deploy.php
+++ b/app/Mcp/Tools/Deploy.php
@@ -74,7 +74,7 @@ class Deploy extends Tool
             deployment_uuid: $deploymentUuid,
             pull_request_id: $pullRequestId,
             force_rebuild: $force,
-            is_api: true,
+            is_mcp: true,
             no_questions_asked: true,
         );
 
diff --git a/app/Mcp/Tools/GetDeployment.php b/app/Mcp/Tools/GetDeployment.php
index b056cb760b..18eeee719a 100644
--- a/app/Mcp/Tools/GetDeployment.php
+++ b/app/Mcp/Tools/GetDeployment.php
@@ -72,6 +72,7 @@ class GetDeployment extends Tool
             'force_rebuild' => $deployment->force_rebuild,
             'is_webhook' => $deployment->is_webhook,
             'is_api' => $deployment->is_api,
+            'is_mcp' => $deployment->is_mcp,
             'restart_only' => $deployment->restart_only,
             'rollback' => $deployment->rollback,
             'git_type' => $deployment->git_type,
diff --git a/app/Mcp/Tools/ListDeployments.php b/app/Mcp/Tools/ListDeployments.php
index e958cc0c32..b3148ee157 100644
--- a/app/Mcp/Tools/ListDeployments.php
+++ b/app/Mcp/Tools/ListDeployments.php
@@ -120,6 +120,7 @@ class ListDeployments extends Tool
             'force_rebuild' => $deployment->force_rebuild,
             'is_webhook' => $deployment->is_webhook,
             'is_api' => $deployment->is_api,
+            'is_mcp' => $deployment->is_mcp,
             'deployment_url' => $deployment->deployment_url,
             'created_at' => $deployment->created_at,
             'updated_at' => $deployment->updated_at,
diff --git a/app/Models/Application.php b/app/Models/Application.php
index bc5782ec12..9b0b735950 100644
--- a/app/Models/Application.php
+++ b/app/Models/Application.php
@@ -1378,12 +1378,14 @@ class Application extends BaseModel
                     'webhook', 'webhooks' => $query->orWhere('is_webhook', true),
                     'rollback', 'rollbacks' => $query->orWhere('rollback', true),
                     'api' => $query->orWhere('is_api', true),
+                    'mcp' => $query->orWhere('is_mcp', true),
                     'manual' => $query->orWhere(function ($sourceQuery) {
                         $sourceQuery
                             ->where('pull_request_id', '<=', 0)
                             ->where('is_webhook', false)
                             ->where('rollback', false)
-                            ->where('is_api', false);
+                            ->where('is_api', false)
+                            ->where('is_mcp', false);
                     }),
                     default => null,
                 };
@@ -1409,7 +1411,8 @@ class Application extends BaseModel
                             'webhook' => $sourceQuery->where('pull_request_id', '<=', 0)->where('is_webhook', true),
                             'rollback' => $sourceQuery->where('pull_request_id', '<=', 0)->where('is_webhook', false)->where('rollback', true),
                             'api' => $sourceQuery->where('pull_request_id', '<=', 0)->where('is_webhook', false)->where('rollback', false)->where('is_api', true),
-                            'manual' => $sourceQuery->where('pull_request_id', '<=', 0)->where('is_webhook', false)->where('rollback', false)->where('is_api', false),
+                            'mcp' => $sourceQuery->where('pull_request_id', '<=', 0)->where('is_webhook', false)->where('rollback', false)->where('is_mcp', true),
+                            'manual' => $sourceQuery->where('pull_request_id', '<=', 0)->where('is_webhook', false)->where('rollback', false)->where('is_api', false)->where('is_mcp', false),
                             default => $sourceQuery->where('id', -1),
                         };
                     });
diff --git a/app/Models/ApplicationDeploymentQueue.php b/app/Models/ApplicationDeploymentQueue.php
index e7c7f69cb8..bf4ad54945 100644
--- a/app/Models/ApplicationDeploymentQueue.php
+++ b/app/Models/ApplicationDeploymentQueue.php
@@ -32,6 +32,7 @@ use OpenApi\Attributes as OA;
         'status' => ['type' => 'string'],
         'is_webhook' => ['type' => 'boolean'],
         'is_api' => ['type' => 'boolean'],
+        'is_mcp' => ['type' => 'boolean'],
         'created_at' => ['type' => 'string'],
         'updated_at' => ['type' => 'string'],
         'logs' => ['type' => 'string'],
@@ -89,7 +90,11 @@ class ApplicationDeploymentQueue extends Model
             }
 
             $application = $deployment->application;
-            $source = $deployment->is_api ? 'api' : 'ui';
+            $source = match (true) {
+                (bool) $deployment->is_mcp => 'mcp',
+                (bool) $deployment->is_api => 'api',
+                default => 'ui',
+            };
 
             auditLog("{$source}.application.rollback", [
                 'team_id' => $application?->team()?->id,
@@ -108,7 +113,11 @@ class ApplicationDeploymentQueue extends Model
             }
 
             $application = $deployment->application;
-            $source = $deployment->is_api ? 'api' : 'ui';
+            $source = match (true) {
+                (bool) $deployment->is_mcp => 'mcp',
+                (bool) $deployment->is_api => 'api',
+                default => 'ui',
+            };
 
             auditLog("{$source}.deployment.cancelled", [
                 'team_id' => $application?->team()?->id,
@@ -145,6 +154,7 @@ class ApplicationDeploymentQueue extends Model
         'rollback',
         'commit_message',
         'is_api',
+        'is_mcp',
         'build_server_id',
         'horizon_job_id',
         'horizon_job_worker',
diff --git a/bootstrap/helpers/applications.php b/bootstrap/helpers/applications.php
index d8f2d27296..1ccee11bd5 100644
--- a/bootstrap/helpers/applications.php
+++ b/bootstrap/helpers/applications.php
@@ -16,7 +16,7 @@ use Illuminate\Support\Facades\DB;
 use Illuminate\Support\Facades\Log;
 use Spatie\Url\Url;
 
-function queue_application_deployment(Application $application, string $deployment_uuid, ?int $pull_request_id = 0, ?string $commit = null, bool $force_rebuild = false, bool $is_webhook = false, bool $is_api = false, bool $restart_only = false, ?string $git_type = null, bool $no_questions_asked = false, ?Server $server = null, ?StandaloneDocker $destination = null, bool $only_this_server = false, bool $rollback = false, ?string $docker_registry_image_tag = null, ?string $parent_deployment_uuid = null)
+function queue_application_deployment(Application $application, string $deployment_uuid, ?int $pull_request_id = 0, ?string $commit = null, bool $force_rebuild = false, bool $is_webhook = false, bool $is_api = false, bool $restart_only = false, ?string $git_type = null, bool $no_questions_asked = false, ?Server $server = null, ?StandaloneDocker $destination = null, bool $only_this_server = false, bool $rollback = false, ?string $docker_registry_image_tag = null, ?string $parent_deployment_uuid = null, bool $is_mcp = false)
 {
     $commit = $commit ?: ($application->git_commit_sha ?: 'HEAD');
     $commit = validateGitRef($commit, 'deployment commit');
@@ -35,7 +35,11 @@ function queue_application_deployment(Application $application, string $deployme
         $destination_id = $destination->id;
     }
 
-    $admission = DB::transaction(function () use ($application, $application_id, $commit, $deployment_uuid, $deployment_url, $destination_id, $docker_registry_image_tag, $force_rebuild, $git_type, $is_api, $is_webhook, $no_questions_asked, $only_this_server, $parent_deployment_uuid, $pull_request_id, $restart_only, $rollback, $server_id, $server_name) {
+    // MCP tools also call the REST API controllers through an internal request.
+    $is_mcp = $is_mcp || request()->attributes->get('mcp_rest_bridge') === true;
+    $is_api = $is_api && ! $is_mcp;
+
+    $admission = DB::transaction(function () use ($application, $application_id, $commit, $deployment_uuid, $deployment_url, $destination_id, $docker_registry_image_tag, $force_rebuild, $git_type, $is_api, $is_mcp, $is_webhook, $no_questions_asked, $only_this_server, $parent_deployment_uuid, $pull_request_id, $restart_only, $rollback, $server_id, $server_name) {
         // Lock stable rows because an empty deployment queue has no row to lock.
         Application::query()->whereKey($application_id)->lockForUpdate()->firstOrFail();
         $serverForQueueCheck = Server::query()->whereKey($server_id)->lockForUpdate()->firstOrFail();
@@ -80,6 +84,7 @@ function queue_application_deployment(Application $application, string $deployme
             'force_rebuild' => $force_rebuild,
             'is_webhook' => $is_webhook,
             'is_api' => $is_api,
+            'is_mcp' => $is_mcp,
             'restart_only' => $restart_only,
             'commit' => $commit,
             'rollback' => $rollback,
@@ -106,7 +111,7 @@ function queue_application_deployment(Application $application, string $deployme
 
     $deployment = $admission['deployment'];
 
-    if (auth()->check() && ! $is_webhook && ! $is_api && ! $rollback) {
+    if (auth()->check() && ! $is_webhook && ! $is_api && ! $is_mcp && ! $rollback) {
         auditLog($restart_only ? 'ui.application.restarted' : 'ui.application.deployed', [
             'application_uuid' => $application->uuid,
             'application_name' => $application->name,
diff --git a/database/migrations/2026_11_03_120133_add_is_mcp_to_application_deployment_queues_table.php b/database/migrations/2026_11_03_120133_add_is_mcp_to_application_deployment_queues_table.php
new file mode 100644
index 0000000000..e4af0ad580
--- /dev/null
+++ b/database/migrations/2026_11_03_120133_add_is_mcp_to_application_deployment_queues_table.php
@@ -0,0 +1,30 @@
+<?php
+
+use Illuminate\Database\Migrations\Migration;
+use Illuminate\Database\Schema\Blueprint;
+use Illuminate\Support\Facades\Schema;
+
+return new class extends Migration
+{
+    public function up(): void
+    {
+        if (Schema::hasColumn('application_deployment_queues', 'is_mcp')) {
+            return;
+        }
+
+        Schema::table('application_deployment_queues', function (Blueprint $table) {
+            $table->boolean('is_mcp')->default(false);
+        });
+    }
+
+    public function down(): void
+    {
+        if (! Schema::hasColumn('application_deployment_queues', 'is_mcp')) {
+            return;
+        }
+
+        Schema::table('application_deployment_queues', function (Blueprint $table) {
+            $table->dropColumn('is_mcp');
+        });
+    }
+};
diff --git a/openapi.json b/openapi.json
index 76ac085a4f..b0f4c7f312 100644
--- a/openapi.json
+++ b/openapi.json
@@ -27187,6 +27187,9 @@
                     "is_api": {
                         "type": "boolean"
                     },
+                    "is_mcp": {
+                        "type": "boolean"
+                    },
                     "created_at": {
                         "type": "string"
                     },
diff --git a/openapi.yaml b/openapi.yaml
index 6ba839ae90..4307e949a3 100644
--- a/openapi.yaml
+++ b/openapi.yaml
@@ -17360,6 +17360,8 @@ components:
           type: boolean
         is_api:
           type: boolean
+        is_mcp:
+          type: boolean
         created_at:
           type: string
         updated_at:
diff --git a/resources/views/livewire/project/application/deployment/index.blade.php b/resources/views/livewire/project/application/deployment/index.blade.php
index 1bbdd9c467..ccbbb9b995 100644
--- a/resources/views/livewire/project/application/deployment/index.blade.php
+++ b/resources/views/livewire/project/application/deployment/index.blade.php
@@ -237,6 +237,7 @@
                                 (bool) data_get($deployment, 'is_webhook') => 'Webhook',
                                 $pullRequestId > 0 => 'Pull request #' . $pullRequestId,
                                 (bool) data_get($deployment, 'rollback') => 'Rollback',
+                                (bool) data_get($deployment, 'is_mcp') => 'MCP',
                                 (bool) data_get($deployment, 'is_api') => 'API',
                                 default => 'Manual',
                             };
@@ -244,6 +245,7 @@
                                 $pullRequestId > 0 => 'pull-request',
                                 (bool) data_get($deployment, 'is_webhook') => 'webhook',
                                 (bool) data_get($deployment, 'rollback') => 'rollback',
+                                (bool) data_get($deployment, 'is_mcp') => 'mcp',
                                 (bool) data_get($deployment, 'is_api') => 'api',
                                 default => 'manual',
                             };